Sh3bp4 SH3-domain binding protein 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Sh3bp4provided by RGD
Full Name: SH3-domain binding protein 4provided by RGD
Primary source: RGD:620219
See related: EnsemblRapid:ENSRNOG00000019316 AllianceGenome:RGD:620219
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable GDP-dissociation inhibitor activity; identical protein binding activity; and small GTPase binding activity. Predicted to be involved in several processes, including negative regulation of GTPase activity; negative regulation of TOR signaling; and protein localization to lysosome. Predicted to be located in clathrin-coated pit; clathrin-coated vesicle; and nucleus. Predicted to be active in cytoplasm. Orthologous to human SH3BP4 (SH3 domain binding protein 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 124.5), Kidney (RPKM 81.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q35

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (97107877..97186878)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (89660156..89739163)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (96210750..96288903)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SH3 binding protein 4 (SH3BP4) has been identified as a negative regulator of Rag GTPases under amino acid starvation. Rag GTPase heterodimers regulate the amino acid-mTORC1 pathway, a master regulator of cell growth and autophagy.
Title: dRAGging amino acid-mTORC1 signaling by SH3BP4.

Submit: New GeneRIF Correction

General gene information

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Markers

RH132817 (e-PCR)
- UniSTS:216100

D9Got114 (e-PCR)
- UniSTS:112757

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GDP-dissociation inhibitor activity	IEA Inferred from Electronic Annotation more info
enables GDP-dissociation inhibitor activity	ISO Inferred from Sequence Orthology more info
enables GDP-dissociation inhibitor activity	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	IEA Inferred from Electronic Annotation more info
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
NOT involved_in amino acid import	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amino acid stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to amino acid stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amino acid stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of TOR signaling	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of TOR signaling	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of TOR signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell growth	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of autophagy	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to lysosome	IEA Inferred from Electronic Annotation more info
involved_in protein localization to lysosome	ISO Inferred from Sequence Orthology more info
involved_in protein localization to lysosome	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of catalytic activity	ISO Inferred from Sequence Orthology more info
involved_in regulation of catalytic activity	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in clathrin-coated pit	IEA Inferred from Electronic Annotation more info
located_in clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: SH3 domain-binding protein 4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_022693.4 → NP_073184.3 SH3 domain-binding protein 4

See identical proteins and their annotated locations for NP_073184.3

Status: VALIDATED

Source sequence(s)

FM034920, JAXUCZ010000009

UniProtKB/Swiss-Prot

Q9JJS5

UniProtKB/TrEMBL

A6JQK2, G3V8J0

Related

ENSRNOP00000026312.2, ENSRNOT00000026312.6

Conserved Domains (3) summary

cd11757
Location:59 → 110

SH3_SH3BP4; Src Homology 3 domain of SH3 domain-binding protein 4

pfam07653
Location:656 → 720

SH3_2; Variant SH3 domain

cl02517
Location:322 → 402

ZU5; ZU5 domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

97107877..97186878

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039084182.2 → XP_038940110.1 SH3 domain-binding protein 4 isoform X1

UniProtKB/Swiss-Prot

Q9JJS5

Conserved Domains (3) summary

cd11757
Location:59 → 110

SH3_SH3BP4; Src Homology 3 domain of SH3 domain-binding protein 4

pfam07653
Location:656 → 717

SH3_2; Variant SH3 domain

cl02517
Location:322 → 402

ZU5; ZU5 domain
XM_039084183.2 → XP_038940111.1 SH3 domain-binding protein 4 isoform X1

UniProtKB/Swiss-Prot

Q9JJS5

Conserved Domains (3) summary

cd11757
Location:59 → 110

SH3_SH3BP4; Src Homology 3 domain of SH3 domain-binding protein 4

pfam07653
Location:656 → 717

SH3_2; Variant SH3 domain

cl02517
Location:322 → 402

ZU5; ZU5 domain
XM_008767298.4 → XP_008765520.1 SH3 domain-binding protein 4 isoform X2

See identical proteins and their annotated locations for XP_008765520.1

UniProtKB/Swiss-Prot

Q9JJS5

UniProtKB/TrEMBL

A6JQK2, G3V8J0

Conserved Domains (3) summary

cd11757
Location:59 → 110

SH3_SH3BP4; Src Homology 3 domain of SH3 domain-binding protein 4

pfam07653
Location:656 → 720

SH3_2; Variant SH3 domain

cl02517
Location:322 → 402

ZU5; ZU5 domain